MmuINT1030853 @ mm10
Intron Retention
Gene
ENSMUSG00000001227 | Sema6b
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B [Source:MGI Symbol;Acc:MGI:1202889]
Coordinates
chr17:56132716-56140343:-
Coord C1 exon
chr17:56140214-56140343
Coord A exon
chr17:56132869-56140213
Coord C2 exon
chr17:56132716-56132868
Length
7345 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
ACCGCCCTCCTGGCTTGTAGGTG
3' ss Score
9.3
Exon sequences
Seq C1 exon
AGAGATGCGGCCCCGGCCGGGACACCGCGCTGCGCCCCCGCGGGAGCCGCCCGCGCGTGGGAGCCCGGGCTGAGACGCTGCGGGGCCGGGGCCGGGGCCGAGCCGAGCAGGTGCTCGGCCTGCGCTGGAG
Seq A exon
GTGAGTGCAGGGACGGACGCGGGGACGCACCTTGGACAGATGCACGGGGGACAGATGCGGCGACGGACGCAGGGACGGACGCAGGGACAGACGCAGGGACAGATGCAGGGACAGATGCAGTGGGCATGCACGCACCAGGCGCGCACAGGGCGCGGGCGCCTCGTGCAGCGGCACTGGCTTGGGGGGCCCCCCGCGTGCGGTCGCAGCTCCAGCGCCCTGGGCGGGGCTAACGGGCTGCGCAGCGGGCGGGGATTGCAGCCAAGGCCCCGGCTCATCGCGCCGGGGCACTGACAGTGGCTTCGAATTATTGGGGTGACGGCCTACTGATGGGGGCGGGGGAGGGGGCGGGACACATAGCCGCGACCTTTCGTGGGTCCCCACGCGGCCCTGTGCACCAGCTGTCCCCAAGCTCTTGGGTACCGGCTGGTCTTCGCCGGCCGCGCAACTGACATGGGGGGGGGGCAGTCCGCGGCCAACGCCCCCGCTGCAGCACAGCCCTAAGCTGGGCTGCCAGCCCCCCCCCCCAAAGCCTGACAATGGGACAAAGGAGCGTCTCTGGCAGCCGCGCGGGGTGGGTGCCACCGTGGCCCCCCTGGCCGACCGCGGTGCTGATTGGTCCCTGGAGCGGGGGTCACGTGCCCCATTCTGCTCTCCACTGCCGACTTTGGGGCGCCTCCCCAGGGCTGCTGCCAGGCCGAACCCCCCACCTTGGCCTCAGATGGTGAATTCTAGGCCTACAACAGCCCTGAGGTCGGGAGGGACTCCTGGGTCCCAGGTCCTCTCTGCCTGGTCTCTGTCACTGAACCCCCAACCCCCGCCGCCTAAGGTCGGTGTCACTCTCATCTGAGGTTCCCAGGTCTCTGTCACCTGCCTGAGGTCTGTGTTGCTCCCCATCTGAGGTCTGTGTTGCTCTCCAGGTCTCCGGGACCCTGGCAGGTCTGTGTCACACTGCCTGACGTCTGTGTCACCCCCAACTTCTTATTTTTTACCTGCTCGATGCCCCAATCCCAAACTGAATGTGATGGAGTTGGGAACCCCAATATTGCAGGCCAACAAGCTTTGGGTGGAGGAGGGTGGCCCTGGGGACAGAATGGCTGGAGGGACTTGCCAGAGCGCCTCTGCCTGGTTACAACGTGCCTTTCTTTCTCTGTATCTTGGACTCGGGTTTTCTGGCTGATTTTCAGGGTGCACGATTGCCTGCGGGCTATTTACAGAGGTTAGAAGTGGGAGAGGTTTGAGGTTCAAGGCCTGGACCTAGACATGGCCTAATGTTGTCTGGCCTGGCCTTCTGGCTGGGTGGCCACTGCTCTCCACTTGGTAGACGGCAGTCTGGGGGTGTCTTGCATCTTGTATTTGTGTCCATCAGCAATGGTACGGTGGCTGGAGGAGGTGGGGAAACTGAGGCACTGAGCGCCAATTGGGGCTTTCCTGTATTGTGAGGCCCTGAGTTCCACAGCAAGAGAGGGAGCTCTGCTCTTTCCATGAACTGAAATGCGAGTCCCTGTGCCTTCTGAGGGTGGCTCTGGGTGTCTCAGGCACTGGCAGAAAGTGAATTGGAACTTTTAGCTCCTCTGTGTGTTCTGGGGCAGGTGGTCAGTCTCTGTGCAGCCTCCTCAGGACAGGGTCTGCCTGCTCCTCACTCCGATGCGTGTGTCCCAGGGCCTCCTGCTCCTCCATCCTCCGGGACTTTCAGACCTGTCCATCTGTCGGTCTGTCTGTCTGTCCATTGGCAGAGGGCAGGCAGGCGGCTGCCCTTGGAGGAGGTGACGTCAGCCTGCGGCCAGGTGAGTGGGACAGAAAGGTGACTGGCGTCTCCTGGGAAGACGAGTGTCCTGAGCTGACCCTGGGTGTGGCCCTGGAGGGGGCAGCTGGGAGCACGGACTCTGCCACTGAGCTGGGAAGTGGGAGTACTTCCCAGGGTGGTTGAACTTTCTGAAGTGGGAGGAGACGACGCTAAGGTTGGTGGAGCAGGAGTTTCATCTCTAGGGCCACACGGAGCCAGGGAGGGAGGTAGAGGAAGCGAAGAGATGGCGAGGCCTCCGGGCTCGCGGGCCTCGAGGATGGGCTGCTGGGAGCCGGGGCACTGGCGGGAGGCTGCGGCTTCCTGGGACCAGAGTGGGTAGGTGACTTTTAACTCAGATGAGAGGCCAGTCCGGCTGAAGACTACATTTCCCAGGATGCTCTTGGCTCAGCCCCAAGGAACTTCTTGACTGCTTTTAGAAGCCTTAAGGGGGATTATGGGTTTCTAGGACGGGGTGGGGGTGGGGTGGGGTCTTGGGTGATCAGGGAAGTCAGTCAGTCAACAAGCATTCTCGGTGGCTCCTGTGTGCCTGTGTGCCATGGTCTGTGTCTGGCTCAGACAGCAAGCCTAACTTGTCTATTTCTTCCACAAGGCAGATCCTAGTTCACTCTGCTGTTTACAGCTGGGGCTGGAGTGGAGGGAGCAACTGAAGCTAGGGAACGTTTGATTCTCCGCTGTGGCTCGGGGAAGGTGGCATGGAGAAGAGGCACTGCAGCTAGAGCTGTGACGGATGTGTAGAAGTTGGGTGGGAGGTGGTCATATATTTTCTGATACACAAGAGGCAGCAAAGAGCCCTTGCCAGGATGTGGCTCTTCGCCCAGTAGCAGTAGCCCTTGCATCAAACCTGCCCTTTCTCTGAGTCTCAGTTTCTCCATGTGTAAAACAGAGCCAATGGCCAGGTTTGTCTGGGCCTGTCCCTACCAACATGGCTGTTGAACTCACAGCTGTGCCAACCTAGTACACCAGCATCCAGCACCTTGAAGACGGGAGCATGGATGGTCCAGCTGGAGAGGAAGTTTTAGAGCTGAGGGCTGGAAGGGTCATGAGGAATAACCCTGCAGGAGAGACGCAGCCATGCAGAGACCCCAGGGACCACAGCTGTGCAAAGGCCCCAGTTGCACGATGCAGCTTGGTGTGGTGGAGGAGGCCCCTGTGGCTGGGAGCAGGGACCATGGCTCTGGGCTAGAGGACTGTGGCTGCGGGTATGGACACTGGGGACTGCACGATCTGGGGATAGCTTCATCTCCAGTGGGTCCCTGTGGGTGGGCTTCAGCCTCCTCAGCAGAGAAAAGTCAGAGCAGTCACTACCTCTGGTACTTAGGTAGATGTCCTCTGACATCTACCACAGGGCTTGGAACACAGCAGATGCTCTAAATCTGATCTGGGAACACAGTAGGTGCTCCATAAGTGTCTGCTGTGGATTGTCTTAAAGGTTCTGGTTCGTAGGTTCTGAGAAGACACGTTCCCCTGAGGTCACCCTCACGGTGACTGGGCTTGACTCTTACCAATGGACGGTTCTTACATCCATCTTATTCTGCCTATGTGTCTGCCATTGTTGACTCACATGGGACCCCTGATCTACTCTGACCCCAGGGACCTATTTCCTGCCTTTGTCTTCTTCAGGCTCTTTGGCCGGTACTTCCTGTTCCCCGAAGTCCTTGGCAAGGCCCTGGCTGCCTGTCATCCTGCATATCTTAGGTGTCCTCATATCAGACACAAAGGTGGAGACCGAATGGTTATGTGTTAGGTAGAGGTGGGCTCGAAGGCCCCTGAAGGACAGAGGCACCTCACTCTTCTCTCTGCCCCACCATCCACTGAAATGTGTTGTGTGACTTTGGCCAAGTAGTGCAACCTCTCTGAGCTCTGTATTTTCCATGGTCTCAAGGCTGGTGTGGGCATGAAGTGGGTTCACACCCATGGGGAACTTTGCACAACATTTATTGACTAGCTTCTGTATACCTGCTGTAGTGCCAAGGCCTAGGTATCTATGACAGGATGAAACCCCTGGCCATGTTGGCCTACAGTCGGGCTCAGGAAGTCTGGAGTGAGCATGTCTTTGCCAGGGTTCCTGTTTTCAGATATTTATTGGTGACTGTTGTGTTAGGCTCAGGGACTTAGCAGTGACCACCAGTGCAGACCCTCCTTTCCTGAGGACATACTAAGCTCAGAGATACCCTTACTGCTAAGCAACTATTGTGTACACTTTTGTATACATTTTGATAACTTACTGAGGGTGGGCGCAGGTCCTGCAGGCTTGTCTTGTGGATGGGGAAACTGGGGCTCCAGTAATGAGGAACCCTGCACAGGTTCATGCTGAGGGGCACACGAGGCTGAGCCCCCTTTCCTTCTGTGCCAAGTGGGGCCTGAGAGGCAGCTGGAGGGGAGCTGTAAGGAGAGCCGGTAACCAGACCAGGCCAGCTCAGGGGCCCTGCTGTCCCACAGTCACTCGATCCCCCTGGGGACACCAGCAGCGCAGCCAGAACCCTGGGGCAGTGGGCCTGCAGGGAGCACTCCGCTGTAGAGGAGGAAGCAGAGGATTACAGTCAGCAGAGGGTCTCTGTGTCCTCCCGCAGAGCCCAAAGGAGCCCAGGGTAGTGGCATCTGGGCCTGGGGTCACAGGCCAGGTGAGGGAGGGGACGACCATGGAAAGCAAGACTGTGATTTGCTTGGTGTCTGTGGAATGGTGAGGAGGAGCCCTTACGCAGCACCTCAGCCCCCATGAAGCAAGAAGGACTGAAGTCAGATTCAAAGCAGAACTTGCCTAAAGAGGCCTGAGGATCCGGTTGAGGTCTGCCCTGGCCCTTGGGGCGCTGAGTGGCTAAAGAAGATTGTAGAATAACTATCAACTAGGGGTGTTCTGCCTCTCAGGGGATGGTTTTGACATTGGGGACATTTACAGTTATCACAGGAACCTGGCACGCAGTGCGTAGGAAGTGGCCATTTGCAGTCACAGGTCAGTCGCAGAGCTGTTAGGGTTTGCATGAGAACCGTAGGTACTGCTGTTCCATCCCACGTCCTGGGCCTCGGTTTCCCCACACAGCCAATGAATTGGGCTGTCTCCTGAGTCTCTGGAAGCCACTTGTGGTGGAGCGGGGTTCGCAGGCAGATGCTGGGGGTACACCCTGAGACAGGTGTCAACACAGGTGTGGGTGGCCCTCTCACAGCTGGGACATTTGCCTGGGGTGGAACACACACTTGGGAGCATGTAGGTGGTCTGACTTTCTGGGGACTCTCGGGGAGGGATTGGCCTGGGTGAGTAGACAGTGGGTGTGTGGCAGAGGACTGGAGGACACTGAGGTGGGTAGGGCTCAATGCTAAGTGTTGATCATTTATTCACATACAACAAGCGATTATTGAGCACCAAAGGTCTACCTGGCCCTAGGAGAGCCACGGACGCCTGCTTGCTGCCCCCCAGAGCATCAAGCTTGTGCAAAGGCCCTGGGGCGGGGCAGAGTGCTGTGGAAAGATTAGGGAGGGAGGCAAAGGACCGAAAGGGAGGAGGGAGGCTGGGGTAGAATGGCAGGGCTGAGGGCAAAGAGCGGACGCGGCGCTCGCAGGCGCCCCCTCGTGTCCACAGTGTGAGGGCAGGGAGGACATGGCGGCGGAGCCAGCCTGGGAGTTGATGGAGGAGAGAAGCCCACGGTTTTACTTCCATTTGCTGTGTGCTGGAGAACTTTGTGGTGGAGTCGAAAATGTGTCACACCTGTGGTGTGAACCTGCGGCTGTGGGGGGTTAGGCTGCGAGGAAGTTAGGCAGTGTGACAGGGAGGGGGCGTGACGGAGGCGTCCAGTGCGGTGCCATGGAAGGGCTTTGGCATGCAGGGATGCTGCAGCGTGTCTGAGACGGGTTAGAACCCCGAGTTCGATGGTGACGCTTGAAGACTCAGCGCGCCATAGCCAGGAGGGGTGGGGGCATGGCTGAGGATCAAGCGATCATGGAGGATGGAGTGCCAGCAGGAGGTGATTCAGGGCTCAGGGGTGGATCTCAGGAAGGTTGAGGTTAGCCTGATTTACATAGTAAGATTTTGTCTCAAAACATTCTATATTTATTATTCTACTTTATTTGTGGGAGGGGCAGAGGCTCTCGTTGAACCCAGAGTTCCTCAAAGCAGCTCCTGTGGTGGCTGAGTCTGGAGCTAGAGTCTGGACCTTGTCCCCGGAAGAAAAGTCAAAGAGTTGGGGGCGTGGCTTGTGGGTTGAGCCGCTCCCTTCCCCTCAAGTCCCCCCAGTGATGGACTGGGACCGTGGACAGGAGTGGAGCCCGACCTAGAATCCCCCCTCCCCCGCGCCCCCCCCCCCGTGATGGGCTGGGGGCGTGGTCTGGAGTGGAACCCTGCCTAGAATCCCCAATGAGGGTCTGGGGACTGTAGCATGGGGTTAGGATGGCCGCAGTGCAGAGGTCAGCCTCCTGGAATCTGGTGTCATGGGGCGGGTACAGGGGGACAGCACAGGGGAGGAGCCAGCTTAGGAAGCTCAGAAGGAAGTAGGCTCATGTCCCAGAACACACGTACTCTGAGTCACAAATCCTGGAAGCCAGGGTCAGGCAGAGGAAGCCGTGCAAGGTCTTCCTGTTTTTTGGCCCTGACCGTTAGAACAGGGGCTGATGTTAGCCTGGGGCTGATATTCCCTCCATCATCCCCACCCACTGTGGCTTCTGATCTCCAAGACACAAGGTCAGGGGTAGGCTGGGAGACATCTCTGCTGCCTGGATGGGGAAACTGAGGCCCAGAGTTTGTTGGAGATTGACGAAGCTTCTGAGAAACCCACGTGGGGTGTCTCGAATTGGACTGTACTCCTTTCTGGTAGGGAGACGCTGCCCTGCCCTGGGGCCCCTAGGTTTGGAGGGCTGGGTCCTGCATGTTTTCACACACCTCAGGATTCCTCACTTATGAATGAGAGCAGAAGGAAGTCGTCCAAGGGGACAGGAAGTCAAACCCACCAGCGACACTAAGGCCCCTGCACACTGCGATATTCTACGACTCCCATTGCTAATGATGTGGTGTATAAAATGCCAAGGGCTTTTAATTCTGCTATGTTTTCTTCTGCCTTTGAATTGGAAATACGGTCCCTCTTTGTGTATTGGTTCTAATTTTGTGGCCATTTGGTTTTATCGTGGGGTCTTGCTATGCAGACCAAGCTGTCCTGGAACTAGTGATGCTCCTGCCTCAGCCTCTCCAAGACTGGGATGACAGGCCTATGCCACAACGCCAGGTTCTAAGGCTTTTCGCGTTTTCATTTGAAGGGTTTTTTAAAAAATGCTTTTTGAGATTGGATTTTTAAACGCATGTTTTAAGATAATATCCATTATTGTAATTCTCGTGATTAATTTTTAATTACCTAATGCATTTTCAGTTGCAGCTATTTCCTGAGAATTTTACTCACATGTGGTCTTAAAGTCGCTTGTTAATTAAACAACGTCTGAGAGTAGTTATTATTATCAATGTTATTTTTATTCTGGGAGGGAGGAAGGGAGGGACTCGCGTGCCCCCTACCGGCTTATTATGAAACTGCAGGCCGCTCAACTCACCGCCCTCCTGGCTTGTAG
Seq C2 exon
GTGTCATCTGTGGTCATCCGGTCCTCACCATGTGGACCCCGCGAGTGCCCCCTCCACGCCCGGCCCTGTCGTTTTTCCTGCTGTTGCTCCTGGGGGTCACCTATGGCCTTTTCCCAGAAGAACCACCTCCACTCAGCGTGGCTCCCAGGGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001227:ENSMUST00000001256:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.048
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types